The H5000 pros
- superior black level to the F5500 (The H5000 actually rivals the F8500)
- Better input lag
- Better calibration options
The H5000 cons
- No 3D
- Skimpy Smart TV
Both are reflective, so keep that in mind.
If I was making this choice, I would pick the H5000 in a heartbeat. The F5500 doesn't really interest me as I'm currently using the Panasonic S60 and I also picked this TV over the F5500/F5300 precisely because of black level. PQ vs. features, your choice.